HEADER LIGASE 02-JUN-22 7XYU TITLE CRYSTAL STRUCTURE OF ZER1 BOUND TO TFLH DEGRON COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN ZER-1 HOMOLOG; COMPND 3 CHAIN: B, A, C, D; COMPND 4 SYNONYM: HZYG,ZYG-11 HOMOLOG B-LIKE PROTEIN,ZYG11B-LIKE PROTEIN; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ZER1, C9ORF60, ZYG, ZYG11BL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS E3, LIGASE EXPDTA X-RAY DIFFRACTION AUTHOR C.DONG,X.YAN,Y.LI REVDAT 2 29-NOV-23 7XYU 1 REMARK REVDAT 1 21-DEC-22 7XYU 0 JRNL AUTH Y.LI,Y.ZHAO,X.YAN,C.YE,S.WEIRICH,B.ZHANG,X.WANG,L.SONG, JRNL AUTH 2 C.JIANG,A.JELTSCH,C.DONG,W.MI JRNL TITL CRL2 ZER1/ZYG11B RECOGNIZES SMALL N-TERMINAL RESIDUES FOR JRNL TITL 2 DEGRADATION. JRNL REF NAT COMMUN V. 13 7636 2022 JRNL REFN ESSN 2041-1723 JRNL PMID 36496439 JRNL DOI 10.1038/S41467-022-35169-6 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.17.1_3660 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.90 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.480 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 29648 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.251 REMARK 3 R VALUE (WORKING SET) : 0.248 REMARK 3 FREE R VALUE : 0.304 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.710 REMARK 3 FREE R VALUE TEST SET COUNT : 1397 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 44.9000 - 5.8100 1.00 2827 149 0.2000 0.2798 REMARK 3 2 5.8100 - 4.6200 1.00 2818 146 0.2401 0.2688 REMARK 3 3 4.6200 - 4.0300 1.00 2830 128 0.2223 0.2730 REMARK 3 4 4.0300 - 3.6600 1.00 2839 144 0.2514 0.2919 REMARK 3 5 3.6600 - 3.4000 1.00 2800 137 0.2803 0.3125 REMARK 3 6 3.4000 - 3.2000 1.00 2817 142 0.2841 0.3616 REMARK 3 7 3.2000 - 3.0400 1.00 2831 144 0.2965 0.3331 REMARK 3 8 3.0400 - 2.9100 1.00 2839 134 0.3134 0.4028 REMARK 3 9 2.9100 - 2.8000 1.00 2788 143 0.3384 0.4295 REMARK 3 10 2.8000 - 2.7000 1.00 2862 130 0.3369 0.4059 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.490 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 33.760 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 84.61 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): 20.2893 -53.0466 -13.7777 REMARK 3 T TENSOR REMARK 3 T11: 0.2172 T22: 0.9114 REMARK 3 T33: 0.4533 T12: 0.1849 REMARK 3 T13: 0.0221 T23: 0.0096 REMARK 3 L TENSOR REMARK 3 L11: 0.3535 L22: 2.3235 REMARK 3 L33: 1.7536 L12: 0.4192 REMARK 3 L13: -0.4637 L23: -1.3966 REMARK 3 S TENSOR REMARK 3 S11: 0.0675 S12: -0.0416 S13: -0.0543 REMARK 3 S21: -0.2526 S22: -0.4222 S23: -0.2060 REMARK 3 S31: 0.1553 S32: 0.3122 S33: 0.1282 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : 1 REMARK 3 NCS GROUP : 1 REMARK 3 NCS OPERATOR : 1 REMARK 3 REFERENCE SELECTION: (CHAIN A AND (RESID 516 THROUGH 621 OR REMARK 3 RESID 625 THROUGH 650 OR RESID 654 REMARK 3 THROUGH 756)) REMARK 3 SELECTION : (CHAIN B AND (RESID 516 THROUGH 621 OR REMARK 3 RESID 625 THROUGH 650 OR RESID 654 REMARK 3 THROUGH 756)) REMARK 3 ATOM PAIRS NUMBER : 2828 REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 2 REMARK 3 REFERENCE SELECTION: (CHAIN A AND (RESID 516 THROUGH 621 OR REMARK 3 RESID 625 THROUGH 650 OR RESID 654 REMARK 3 THROUGH 756)) REMARK 3 SELECTION : (CHAIN C AND (RESID 516 THROUGH 621 OR REMARK 3 RESID 625 THROUGH 650 OR RESID 654 REMARK 3 THROUGH 756)) REMARK 3 ATOM PAIRS NUMBER : 2828 REMARK 3 RMSD : NULL REMARK 3 NCS OPERATOR : 3 REMARK 3 REFERENCE SELECTION: (CHAIN A AND (RESID 516 THROUGH 621 OR REMARK 3 RESID 625 THROUGH 650 OR RESID 654 REMARK 3 THROUGH 756)) REMARK 3 SELECTION : CHAIN D REMARK 3 ATOM PAIRS NUMBER : 2828 REMARK 3 RMSD : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7XYU COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-JUN-22. REMARK 100 THE DEPOSITION ID IS D_1300029702. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 03-JUL-21 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRF REMARK 200 BEAMLINE : BL02U1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.979183 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS EIGER2 S 9M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29654 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 48.050 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.01634 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 33.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.12030 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 7EP3 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 48.22 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.38 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.16 M SODIUM MALONATE PH 7.0, 20% PEG REMARK 280 3350, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 139.39367 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 278.78733 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 209.09050 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 348.48417 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 69.69683 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2830 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: B, D REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2840 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 20210 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -12.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, C REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 LEU B 690 REMARK 465 GLU B 760 REMARK 465 ASN B 761 REMARK 465 MET B 762 REMARK 465 ASP B 763 REMARK 465 THR B 764 REMARK 465 SER B 765 REMARK 465 ARG B 766 REMARK 465 ASN A 761 REMARK 465 MET A 762 REMARK 465 ASP A 763 REMARK 465 THR A 764 REMARK 465 SER A 765 REMARK 465 ARG A 766 REMARK 465 CYS C 652 REMARK 465 LYS C 758 REMARK 465 GLU C 759 REMARK 465 GLU C 760 REMARK 465 ASN C 761 REMARK 465 MET C 762 REMARK 465 ASP C 763 REMARK 465 THR C 764 REMARK 465 SER C 765 REMARK 465 ARG C 766 REMARK 465 GLU D 622 REMARK 465 SER D 623 REMARK 465 LYS D 624 REMARK 465 VAL D 651 REMARK 465 CYS D 652 REMARK 465 GLU D 653 REMARK 465 PRO D 691 REMARK 465 PHE D 757 REMARK 465 LYS D 758 REMARK 465 GLU D 759 REMARK 465 GLU D 760 REMARK 465 ASN D 761 REMARK 465 MET D 762 REMARK 465 ASP D 763 REMARK 465 THR D 764 REMARK 465 SER D 765 REMARK 465 ARG D 766 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 NH1 ARG B 605 O HIS B 640 2.02 REMARK 500 OG SER D 695 OG SER D 698 2.03 REMARK 500 OD2 ASP D 644 O HOH D 801 2.10 REMARK 500 O TYR C 707 OG SER C 711 2.13 REMARK 500 OE2 GLU D 557 O HOH D 802 2.15 REMARK 500 O ARG C 740 OG1 THR C 743 2.16 REMARK 500 NE2 GLN B 668 O HOH B 801 2.17 REMARK 500 O ASP A 671 OG SER A 674 2.18 REMARK 500 O CYS B 635 OG SER B 639 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 CD1 ILE A 694 OE1 GLU C 653 1655 1.55 REMARK 500 CG1 ILE A 694 OE1 GLU C 653 1655 1.91 REMARK 500 OE2 GLU B 759 OE1 GLN A 542 1665 2.13 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 LYS B 602 CD LYS B 602 CE 0.193 REMARK 500 ARG D 748 CB ARG D 748 CG -0.215 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 TRP B 649 CA - CB - CG ANGL. DEV. = 11.8 DEGREES REMARK 500 GLU B 658 CA - CB - CG ANGL. DEV. = 13.6 DEGREES REMARK 500 LYS B 749 CD - CE - NZ ANGL. DEV. = -19.9 DEGREES REMARK 500 LEU A 578 CA - CB - CG ANGL. DEV. = 21.1 DEGREES REMARK 500 ARG A 605 CB - CG - CD ANGL. DEV. = 16.2 DEGREES REMARK 500 ARG A 605 CG - CD - NE ANGL. DEV. = 14.0 DEGREES REMARK 500 LEU A 620 CB - CG - CD1 ANGL. DEV. = 12.5 DEGREES REMARK 500 MET C 609 CB - CG - SD ANGL. DEV. = 30.3 DEGREES REMARK 500 ARG C 748 NE - CZ - NH2 ANGL. DEV. = -3.0 DEGREES REMARK 500 PHE D 546 CB - CA - C ANGL. DEV. = -12.0 DEGREES REMARK 500 LYS D 572 CD - CE - NZ ANGL. DEV. = -26.0 DEGREES REMARK 500 GLU D 603 CB - CA - C ANGL. DEV. = -17.6 DEGREES REMARK 500 GLU D 603 CA - CB - CG ANGL. DEV. = 13.9 DEGREES REMARK 500 ARG D 675 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG D 675 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 GLU D 684 CA - CB - CG ANGL. DEV. = 14.6 DEGREES REMARK 500 GLU D 742 CA - CB - CG ANGL. DEV. = 21.0 DEGREES REMARK 500 ARG D 748 CG - CD - NE ANGL. DEV. = -24.9 DEGREES REMARK 500 ARG D 748 NE - CZ - NH1 ANGL. DEV. = 7.2 DEGREES REMARK 500 ARG D 748 NE - CZ - NH2 ANGL. DEV. = -7.3 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 PHE B 568 42.01 -96.69 REMARK 500 MET B 609 71.82 -104.23 REMARK 500 ASP B 626 53.90 32.88 REMARK 500 GLN A 542 -42.76 69.78 REMARK 500 PHE A 568 38.67 -83.96 REMARK 500 LYS A 584 79.85 -105.81 REMARK 500 LYS A 624 52.32 -95.37 REMARK 500 PRO A 691 47.28 -85.21 REMARK 500 ASP C 541 34.20 -98.29 REMARK 500 GLN C 542 -17.10 70.57 REMARK 500 MET C 609 69.73 -108.86 REMARK 500 ASP C 626 52.88 39.34 REMARK 500 PHE D 568 46.64 -96.54 REMARK 500 ASN D 569 54.96 32.05 REMARK 500 MET D 609 73.93 -103.97 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 ILE D 628 GLU D 629 -149.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 ARG B 656 0.10 SIDE CHAIN REMARK 500 ARG C 748 0.07 SIDE CHAIN REMARK 500 ARG D 748 0.10 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 7XYU B 520 766 UNP Q7Z7L7 ZER1_HUMAN 520 766 DBREF 7XYU A 520 766 UNP Q7Z7L7 ZER1_HUMAN 520 766 DBREF 7XYU C 520 766 UNP Q7Z7L7 ZER1_HUMAN 520 766 DBREF 7XYU D 520 766 UNP Q7Z7L7 ZER1_HUMAN 520 766 SEQADV 7XYU THR B 516 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU PHE B 517 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU LEU B 518 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU HIS B 519 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU THR A 516 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU PHE A 517 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU LEU A 518 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU HIS A 519 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU THR C 516 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU PHE C 517 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU LEU C 518 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU HIS C 519 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU THR D 516 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU PHE D 517 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU LEU D 518 UNP Q7Z7L7 EXPRESSION TAG SEQADV 7XYU HIS D 519 UNP Q7Z7L7 EXPRESSION TAG SEQRES 1 B 251 THR PHE LEU HIS LYS MET GLY PHE VAL VAL THR MET LEU SEQRES 2 B 251 LYS LEU ILE GLN LYS LYS LEU LEU ASP LYS THR CYS ASP SEQRES 3 B 251 GLN VAL MET GLU PHE SER TRP SER ALA LEU TRP ASN ILE SEQRES 4 B 251 THR ASP GLU THR PRO ASP ASN CYS GLU MET PHE LEU ASN SEQRES 5 B 251 PHE ASN GLY MET LYS LEU PHE LEU ASP CYS LEU LYS GLU SEQRES 6 B 251 PHE PRO GLU LYS GLN GLU LEU HIS ARG ASN MET LEU GLY SEQRES 7 B 251 LEU LEU GLY ASN VAL ALA GLU VAL LYS GLU LEU ARG PRO SEQRES 8 B 251 GLN LEU MET THR SER GLN PHE ILE SER VAL PHE SER ASN SEQRES 9 B 251 LEU LEU GLU SER LYS ALA ASP GLY ILE GLU VAL SER TYR SEQRES 10 B 251 ASN ALA CYS GLY VAL LEU SER HIS ILE MET PHE ASP GLY SEQRES 11 B 251 PRO GLU ALA TRP GLY VAL CYS GLU PRO GLN ARG GLU GLU SEQRES 12 B 251 VAL GLU GLU ARG MET TRP ALA ALA ILE GLN SER TRP ASP SEQRES 13 B 251 ILE ASN SER ARG ARG ASN ILE ASN TYR ARG SER PHE GLU SEQRES 14 B 251 PRO ILE LEU ARG LEU LEU PRO GLN GLY ILE SER PRO VAL SEQRES 15 B 251 SER GLN HIS TRP ALA THR TRP ALA LEU TYR ASN LEU VAL SEQRES 16 B 251 SER VAL TYR PRO ASP LYS TYR CYS PRO LEU LEU ILE LYS SEQRES 17 B 251 GLU GLY GLY MET PRO LEU LEU ARG ASP ILE ILE LYS MET SEQRES 18 B 251 ALA THR ALA ARG GLN GLU THR LYS GLU MET ALA ARG LYS SEQRES 19 B 251 VAL ILE GLU HIS CYS SER ASN PHE LYS GLU GLU ASN MET SEQRES 20 B 251 ASP THR SER ARG SEQRES 1 A 251 THR PHE LEU HIS LYS MET GLY PHE VAL VAL THR MET LEU SEQRES 2 A 251 LYS LEU ILE GLN LYS LYS LEU LEU ASP LYS THR CYS ASP SEQRES 3 A 251 GLN VAL MET GLU PHE SER TRP SER ALA LEU TRP ASN ILE SEQRES 4 A 251 THR ASP GLU THR PRO ASP ASN CYS GLU MET PHE LEU ASN SEQRES 5 A 251 PHE ASN GLY MET LYS LEU PHE LEU ASP CYS LEU LYS GLU SEQRES 6 A 251 PHE PRO GLU LYS GLN GLU LEU HIS ARG ASN MET LEU GLY SEQRES 7 A 251 LEU LEU GLY ASN VAL ALA GLU VAL LYS GLU LEU ARG PRO SEQRES 8 A 251 GLN LEU MET THR SER GLN PHE ILE SER VAL PHE SER ASN SEQRES 9 A 251 LEU LEU GLU SER LYS ALA ASP GLY ILE GLU VAL SER TYR SEQRES 10 A 251 ASN ALA CYS GLY VAL LEU SER HIS ILE MET PHE ASP GLY SEQRES 11 A 251 PRO GLU ALA TRP GLY VAL CYS GLU PRO GLN ARG GLU GLU SEQRES 12 A 251 VAL GLU GLU ARG MET TRP ALA ALA ILE GLN SER TRP ASP SEQRES 13 A 251 ILE ASN SER ARG ARG ASN ILE ASN TYR ARG SER PHE GLU SEQRES 14 A 251 PRO ILE LEU ARG LEU LEU PRO GLN GLY ILE SER PRO VAL SEQRES 15 A 251 SER GLN HIS TRP ALA THR TRP ALA LEU TYR ASN LEU VAL SEQRES 16 A 251 SER VAL TYR PRO ASP LYS TYR CYS PRO LEU LEU ILE LYS SEQRES 17 A 251 GLU GLY GLY MET PRO LEU LEU ARG ASP ILE ILE LYS MET SEQRES 18 A 251 ALA THR ALA ARG GLN GLU THR LYS GLU MET ALA ARG LYS SEQRES 19 A 251 VAL ILE GLU HIS CYS SER ASN PHE LYS GLU GLU ASN MET SEQRES 20 A 251 ASP THR SER ARG SEQRES 1 C 251 THR PHE LEU HIS LYS MET GLY PHE VAL VAL THR MET LEU SEQRES 2 C 251 LYS LEU ILE GLN LYS LYS LEU LEU ASP LYS THR CYS ASP SEQRES 3 C 251 GLN VAL MET GLU PHE SER TRP SER ALA LEU TRP ASN ILE SEQRES 4 C 251 THR ASP GLU THR PRO ASP ASN CYS GLU MET PHE LEU ASN SEQRES 5 C 251 PHE ASN GLY MET LYS LEU PHE LEU ASP CYS LEU LYS GLU SEQRES 6 C 251 PHE PRO GLU LYS GLN GLU LEU HIS ARG ASN MET LEU GLY SEQRES 7 C 251 LEU LEU GLY ASN VAL ALA GLU VAL LYS GLU LEU ARG PRO SEQRES 8 C 251 GLN LEU MET THR SER GLN PHE ILE SER VAL PHE SER ASN SEQRES 9 C 251 LEU LEU GLU SER LYS ALA ASP GLY ILE GLU VAL SER TYR SEQRES 10 C 251 ASN ALA CYS GLY VAL LEU SER HIS ILE MET PHE ASP GLY SEQRES 11 C 251 PRO GLU ALA TRP GLY VAL CYS GLU PRO GLN ARG GLU GLU SEQRES 12 C 251 VAL GLU GLU ARG MET TRP ALA ALA ILE GLN SER TRP ASP SEQRES 13 C 251 ILE ASN SER ARG ARG ASN ILE ASN TYR ARG SER PHE GLU SEQRES 14 C 251 PRO ILE LEU ARG LEU LEU PRO GLN GLY ILE SER PRO VAL SEQRES 15 C 251 SER GLN HIS TRP ALA THR TRP ALA LEU TYR ASN LEU VAL SEQRES 16 C 251 SER VAL TYR PRO ASP LYS TYR CYS PRO LEU LEU ILE LYS SEQRES 17 C 251 GLU GLY GLY MET PRO LEU LEU ARG ASP ILE ILE LYS MET SEQRES 18 C 251 ALA THR ALA ARG GLN GLU THR LYS GLU MET ALA ARG LYS SEQRES 19 C 251 VAL ILE GLU HIS CYS SER ASN PHE LYS GLU GLU ASN MET SEQRES 20 C 251 ASP THR SER ARG SEQRES 1 D 251 THR PHE LEU HIS LYS MET GLY PHE VAL VAL THR MET LEU SEQRES 2 D 251 LYS LEU ILE GLN LYS LYS LEU LEU ASP LYS THR CYS ASP SEQRES 3 D 251 GLN VAL MET GLU PHE SER TRP SER ALA LEU TRP ASN ILE SEQRES 4 D 251 THR ASP GLU THR PRO ASP ASN CYS GLU MET PHE LEU ASN SEQRES 5 D 251 PHE ASN GLY MET LYS LEU PHE LEU ASP CYS LEU LYS GLU SEQRES 6 D 251 PHE PRO GLU LYS GLN GLU LEU HIS ARG ASN MET LEU GLY SEQRES 7 D 251 LEU LEU GLY ASN VAL ALA GLU VAL LYS GLU LEU ARG PRO SEQRES 8 D 251 GLN LEU MET THR SER GLN PHE ILE SER VAL PHE SER ASN SEQRES 9 D 251 LEU LEU GLU SER LYS ALA ASP GLY ILE GLU VAL SER TYR SEQRES 10 D 251 ASN ALA CYS GLY VAL LEU SER HIS ILE MET PHE ASP GLY SEQRES 11 D 251 PRO GLU ALA TRP GLY VAL CYS GLU PRO GLN ARG GLU GLU SEQRES 12 D 251 VAL GLU GLU ARG MET TRP ALA ALA ILE GLN SER TRP ASP SEQRES 13 D 251 ILE ASN SER ARG ARG ASN ILE ASN TYR ARG SER PHE GLU SEQRES 14 D 251 PRO ILE LEU ARG LEU LEU PRO GLN GLY ILE SER PRO VAL SEQRES 15 D 251 SER GLN HIS TRP ALA THR TRP ALA LEU TYR ASN LEU VAL SEQRES 16 D 251 SER VAL TYR PRO ASP LYS TYR CYS PRO LEU LEU ILE LYS SEQRES 17 D 251 GLU GLY GLY MET PRO LEU LEU ARG ASP ILE ILE LYS MET SEQRES 18 D 251 ALA THR ALA ARG GLN GLU THR LYS GLU MET ALA ARG LYS SEQRES 19 D 251 VAL ILE GLU HIS CYS SER ASN PHE LYS GLU GLU ASN MET SEQRES 20 D 251 ASP THR SER ARG FORMUL 5 HOH *23(H2 O) HELIX 1 AA1 LYS B 520 ASP B 537 1 18 HELIX 2 AA2 ASP B 541 THR B 555 1 15 HELIX 3 AA3 THR B 558 PHE B 568 1 11 HELIX 4 AA4 ASN B 569 PHE B 581 1 13 HELIX 5 AA5 LYS B 584 GLU B 600 1 17 HELIX 6 AA6 VAL B 601 MET B 609 5 9 HELIX 7 AA7 THR B 610 LEU B 620 1 11 HELIX 8 AA8 LEU B 621 SER B 623 5 3 HELIX 9 AA9 ILE B 628 ASP B 644 1 17 HELIX 10 AB1 GLY B 645 TRP B 649 5 5 HELIX 11 AB2 GLN B 655 TRP B 670 1 16 HELIX 12 AB3 PHE B 683 ARG B 688 1 6 HELIX 13 AB4 SER B 695 TYR B 713 1 19 HELIX 14 AB5 TYR B 713 GLU B 724 1 12 HELIX 15 AB6 GLY B 725 LYS B 735 1 11 HELIX 16 AB7 ARG B 740 GLU B 759 1 20 HELIX 17 AB8 LYS A 520 ASP A 537 1 18 HELIX 18 AB9 GLN A 542 THR A 555 1 14 HELIX 19 AC1 THR A 558 PHE A 568 1 11 HELIX 20 AC2 ASN A 569 PHE A 581 1 13 HELIX 21 AC3 LYS A 584 GLU A 600 1 17 HELIX 22 AC4 VAL A 601 MET A 609 5 9 HELIX 23 AC5 THR A 610 LEU A 620 1 11 HELIX 24 AC6 ILE A 628 PHE A 643 1 16 HELIX 25 AC7 ASP A 644 TRP A 649 5 6 HELIX 26 AC8 GLN A 655 TRP A 670 1 16 HELIX 27 AC9 PHE A 683 ARG A 688 1 6 HELIX 28 AD1 SER A 695 TYR A 713 1 19 HELIX 29 AD2 TYR A 713 GLU A 724 1 12 HELIX 30 AD3 GLY A 725 LYS A 735 1 11 HELIX 31 AD4 ARG A 740 GLU A 759 1 20 HELIX 32 AD5 LYS C 520 ASP C 537 1 18 HELIX 33 AD6 GLN C 542 ASP C 556 1 15 HELIX 34 AD7 THR C 558 PHE C 568 1 11 HELIX 35 AD8 ASN C 569 PHE C 581 1 13 HELIX 36 AD9 LYS C 584 GLU C 600 1 17 HELIX 37 AE1 VAL C 601 MET C 609 5 9 HELIX 38 AE2 THR C 610 LEU C 620 1 11 HELIX 39 AE3 ILE C 628 PHE C 643 1 16 HELIX 40 AE4 ASP C 644 TRP C 649 5 6 HELIX 41 AE5 GLN C 655 TRP C 670 1 16 HELIX 42 AE6 PHE C 683 ARG C 688 1 6 HELIX 43 AE7 SER C 695 TYR C 713 1 19 HELIX 44 AE8 TYR C 713 GLU C 724 1 12 HELIX 45 AE9 GLY C 725 LYS C 735 1 11 HELIX 46 AF1 ARG C 740 PHE C 757 1 18 HELIX 47 AF2 LYS D 520 ASP D 537 1 18 HELIX 48 AF3 ASP D 541 THR D 555 1 15 HELIX 49 AF4 THR D 558 PHE D 568 1 11 HELIX 50 AF5 ASN D 569 PHE D 581 1 13 HELIX 51 AF6 LYS D 584 GLU D 600 1 17 HELIX 52 AF7 VAL D 601 MET D 609 5 9 HELIX 53 AF8 THR D 610 LEU D 620 1 11 HELIX 54 AF9 ILE D 628 PHE D 643 1 16 HELIX 55 AG1 GLN D 655 TRP D 670 1 16 HELIX 56 AG2 PHE D 683 ARG D 688 1 6 HELIX 57 AG3 SER D 695 TYR D 713 1 19 HELIX 58 AG4 TYR D 713 GLU D 724 1 12 HELIX 59 AG5 GLY D 725 LYS D 735 1 11 HELIX 60 AG6 ARG D 740 ASN D 756 1 17 CISPEP 1 GLU B 653 PRO B 654 0 1.63 CISPEP 2 GLU A 653 PRO A 654 0 7.77 CRYST1 67.779 67.779 418.181 90.00 90.00 120.00 P 61 24 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.014754 0.008518 0.000000 0.00000 SCALE2 0.000000 0.017036 0.000000 0.00000 SCALE3 0.000000 0.000000 0.002391 0.00000